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Mixed model ML analyses

md emdadul hoque chowdhoury emdad60 at hotmail.com
Fri Jan 26 11:14:07 EST 2001

This analysis is possible in PAML written by Dr Z. Yang. Check the manual, you have
to assign different numbers to different genes/gene regions.

John Harshman wrote:

> In article <91r6td$k9j$1 at mercury.hgmp.mrc.ac.uk>, Mark Dowton
> <mdowton at uow.edu.au> wrote:
> > Is it possible yet to do ML analyses (i.e. heuristic or global searches)
> > of multi-partition datasets, in which different models are specified for
> > each partition (so-called mixed-model analyses)?  As far as I can tell,
> > this isn't possible with PAUP 4*, but perhaps someone has written
> > something specifically for this purpose.
> It's impossible with PAUP as currently available. There is such a
> capability under development for a future release of PAUP, and I suspect
> it may even be incorporated into the final (i.e. non-beta) version of PAUP
> 4.
> Caveat: Don't take what I say as representing Dave Swofford's actual intentions.
> --
>    *Note the obvious spam-defeating modification
>     to my address if you reply by email.


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